Differences between revisions 26 and 27
Revision 26 as of 2015-11-25 07:36:42
Size: 6434
Editor: ?KevinMurray
Comment: Add KDM as an attendant
Revision 27 as of 2015-11-25 18:03:29
Size: 6265
Editor: AndreasTille
Comment: Olivier has cancelled (unfortunately)
Deletions are marked like this. Additions are marked like this.
Line 27: Line 27:
|| 7|| Olivier Sallou || osallou at d.o || no || || Debian || France || || ||
|| 8
|| Luca Clivio || luca.clivio@marionegri.it || || || Mario Negri Institute for Pharmacologic Research || Italy || Thu || Sun ||
|| 9|| Kevin Murray || spam@kdmurray.id.au || || || CPEB, Australian National University || Australia || Thu || Sat ||
|| 7|| Luca Clivio || luca.clivio@marionegri.it || || || Mario Negri Institute for Pharmacologic Research || Italy || Thu || Sun ||
|| 8|| Kevin Murray || spam@kdmurray.id.au || || || CPEB, Australian National University || Australia || Thu || Sat ||

Debian Med 2016 Sprint

We fill this place with Life!

hotel conference room it is nice out there

Location, Date

  • Thu 4th - Sun 7th February 2016
  • Sinatur Hotel Frederiksdal, Lyngby

Google maps http://www.sinatur.dk trip adivsor

Participants

(tentative/final list of participants here before/after the sprint)

No

Name

Email

confirmed

booked accom.

Organisation

Living in

Arrival at

Departure at

1

Andreas Tille

tille at d.o

Debian

Germany

2

Steffen Möller

moeller at d.o

Debian, Uni Rostock

Germany

3

Jon Ison

jison@cbs.dtu.dk

yes

DTU, ELIXIR-DK

GB

Thu

Sun

4

Kristoffer Rapacki

rapacki@cbs.dtu.dk

yes

DTU, ELIXIR-DK

Denmark

Thu

Sun

5

Sascha Steinbiss

sascha at steinbiss.name

yes

via DTU

WTSI

UK

Thu

Sun

6

Michael R. Crusoe

crusoe@ucdavis.edu

UCDavis; Common Workflow Language

Romania

Thu

Sun

7

Luca Clivio

luca.clivio@marionegri.it

Mario Negri Institute for Pharmacologic Research

Italy

Thu

Sun

8

Kevin Murray

spam@kdmurray.id.au

CPEB, Australian National University

Australia

Thu

Sat

Agenda

(tentative/final agenda here before/after the sprint)

  • Link to the ELIXIR-DB
    • workflow for automated updates
    • review of contributed annotations
  • Presentation of Debian Med / Bio-Linux / ... (?) on international conferences
    • booth
    • software collection
    • supporting-groups/people collection
    • workflows
  • Ideas for interactions with other blends? Debian initiatives?
    • Astronomy shares handling of large public data files
    • ARM and PowerPC vendors should have an interest to see the Debian Bioinformatics world ported. Where are they?

Collaboration with ELIXIR

The Tools and Data Services Registry provides essential scientific and technical information about analytical tools and data services for bioinformatics. The registry is provided by a community effort coordinated by the Danish node of ELIXIR - the European infrastructure for biological information. Debian Med already includes packages for many key tools in bioinformatics and we’re working to forge a vibrant collaboration between ELIXIR and Debian Med to ensure:

  • the package descriptions are annotated to the standard required by the registry and

  • establish a permanent mechanism for registration, updates and sharing of the package descriptions

To these ends, ELIXIR-DK would like to support this sprint by sponsoring an “extra day” (Thu - Fri) dedicated to registry work:

  • ELIXIR-DK will pay for the meeting room at the hotel on Thursday 4th - Sunday 7th inclusive
  • In addition, for anyone arriving on Thursday Feb 4th to help out, ELIXIR-DK will pay for a European flight and a hotel room and evening meal for Thursday night

In practical terms, package registration should be straightforward given a sensible data sharing mechanism, which we can settle at the meeting. The time-consuming part is the annotation, so we’d like to focus on 10 attributes which are mandatory in the ELIXIR registry. This includes terms from the EDAM vocabulary to describe the package “topic” (broad scientific category), “operation” (exactly what a tool does) and “data” (input and output type of data) which can also include “format” (specific data formats): EDAM developers will be on-hand to help with this.

Any questions? For enquiries about venue, hotel etc. please mail Myhanh Nguyen. For technical enquries please mail registry@elixir-dk.org, alternatively mail Jon Ison and Kristoffer Rapacki directly.

Reports

(pointers to communication about the sprint)

  • announcement: (e.g. link to lists.d.o archives)
  • report: (e.g. link to lists.d.o archives)
  • other:
  • other:
  • ...
  • report proposal by Luca Clivio: Decentralized data management in 'hostile' environments: safety and security for clinical research data sharing in hospitals with commodity hardware surviving the IT restrictions.

Acknowledgements

the sprint has been possible thanks to:


CategorySprint